MmuEX6056180 @ mm9
Exon Skipping
Gene
ENSMUSG00000022483 | Col2a1
Description
collagen, type II, alpha 1 [Source:MGI Symbol;Acc:MGI:88452]
Coordinates
chr15:97812435-97813400:-
Coord C1 exon
chr15:97813347-97813400
Coord A exon
chr15:97812960-97813067
Coord C2 exon
chr15:97812435-97812488
Length
108 bp
Sequences
Splice sites
3' ss Seq
GTCTCTTCTTCCTATTACAGGGT
3' ss Score
10.64
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
GGTGAACGCGGAGAGACCGGGCCACCTGGACCTGCTGGATTCGCTGGCCCTCCT
Seq A exon
GGTGCTGATGGCCAGCCTGGTGCCAAGGGTGATCAAGGAGAAGCCGGACAGAAAGGAGATGCTGGTGCCCCCGGCCCACAAGGCCCCTCGGGAGCCCCTGGGCCACAG
Seq C2 exon
GGTCCTACTGGAGTGACTGGTCCTAAGGGAGCCCGAGGTGCCCAAGGTCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022483-'48-44,'48-43,49-44=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(15.2=77.8)
A:
PF0139113=Collagen=PD(25.6=55.6),PF0139113=Collagen=FE(38.0=100)
C2:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(12.9=61.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAACGCGGAGAGACC
R:
CTCGGGCTCCCTTAGGACC
Band lengths:
91-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: